Main
Paul Yuchao Dong
Vice President of Spring Asset. as a CFA Charterholder, I have been working as a real estate finance professional for 12 years. Studied at Tsinghua University and University of Hong Kong. I had worked on IPO, disposal of significant commercial property and offshore acquisitions. I had been working with my current employer Spring Asset Management for more than 5 years, focusing on financing and investment.
I am broadly interested in data munging and visualization, Bayesian data analysis and mathematics.
Research Experience
Professor
School of Basic Medical Sciences
Southern Medical University
present - 2018
- Associate director, Department of Bioinformatics
Post-doctoral Fellow
State Key Laboratory of Infectious Diseases
The University of Hong Kong
2018 - 2017
Bioinformatician
Key Laboratory of Functional Protein Research of Guangdong Higher Education Institutes
Jinan University
2013 - 2009
Education
PhD., Bioinformaitcs
The University of Hong Kong
Hong Kong, CN
2017 - 2013
- Thesis: Big-data computational methods for studying molecular evolution: from accurate genome assembly to phylogenetic analysis and data integration
M.S., Biochemistry and Molecular Biology
Anhui Medical University
Hefei, CN
2009 - 2006
- Thesis: miRNA靶基因<U+8BA1>算分析新方法及其<U+5E94>用研究
B.S., Biotechnology
South China Agricultural University
Guangzhou, CN
2005 - 2001
南方<U+533B>科大<U+5B66>高<U+5C42>次人才“不忘初心 牢<U+8BB0>使命”<U+5B66><U+4E60>教育
延安干部培<U+8BAD><U+5B66>院
Yan’an, CN
2018
Train the Trainers
Institut Pasteur
Paris, FR
2015
Certificate
Certificate of Teaching and Learning in Higher Education
Centre for Enhancement of Teaching and Learning
The University of Hong Kong
2015
Teaching Experience
BMB209: Workshops in Applied Bioinformatics
Department of Biochemistry and Molecular Biology
University of Southern Denmark
2019
- PhD level class, invited lecture
生物信息<U+5B66>科研<U+8BAD><U+7EC3>
School of Basic Medical Sciences
Southern Medical University
- Undergraduate level class
基因<U+7EC4><U+5B66>
School of Basic Medical Sciences
Southern Medical University
- Undergraduate level class
基<U+7840><U+533B><U+5B66>新<U+8FDB>展<U+8BB2>座
School of Basic Medical Sciences
Southern Medical University
- Undergraduate level class
功能蛋白<U+8D28>研究
College of Life Science and Technology
Jinan University
2012 - 2011
- Graduate level class
Grants
南方<U+533B>科大<U+5B66>第三<U+5C42>次人才引<U+8FDB>科研<U+9879>目 (G618289088)
PI, CNY ¥1,500,000
N/A
2020 - 2018
hnRNPK蛋白在<U+8C03>控人肺癌<U+7EC6>胞周期胞<U+8D28>分裂中的作用研究 (21613414)
PI, CNY ¥100,000, 中央高校基本科研<U+4E1A><U+52A1><U+8D39><U+4E13><U+9879><U+8D44>金
N/A
2013
Hela<U+7EC6>胞周期<U+52A8><U+6001>蛋白<U+8D28><U+7EC4><U+5B66>分析 (21611303)
PI, CNY ¥20,000, 中央高校基本科研<U+4E1A><U+52A1><U+8D39><U+4E13><U+9879><U+8D44>金
N/A
2011
Books
生物信息<U+5B66>II
《功能蛋白<U+8D28>研究》. 385-425. 何<U+5E86>瑜(主<U+7F16>),科<U+5B66>出版社 (“十二五”<U+56FD>家重<U+70B9><U+56FE><U+4E66>出版<U+89C4>划<U+9879>目)
N/A
2012
- 余光<U+521B>
Publications
- Citation = 3649
- H-index = 16
- I10-index = 22
treeio: an R package for phylogenetic tree input and output with richly annotated and associated data
Molecular Biology and Evolution. 2019, accepted
N/A
2019
- LG Wang, TTY Lam, S Xu, Z Dai, L Zhou, T Feng, P Guo, CW Dunn, BR Jones, T Bradley, H Zhu, Y Guan, Y Jiang, G Yu*
- Impact Factor = 14.797
Two methods for mapping and visualizing associated data on phylogeny using ggtree1
Molecular Biology and Evolution. 2018, 35(12):3041-3043.
N/A
2018
- G Yu*, TTY Lam, H Zhu, Y Guan*
- Impact Factor = 14.797
Using meshes for MeSH term enrichment and semantic analyses2
Bioinformatics. 2018, 34(21):3766–3767.
N/A
- G Yu
ggtree: an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data3
Methods in Ecology and Evolution. 2017, 8(1):28-36
N/A
2017
- G Yu, DK Smith, H Zhu, Y Guan, TTY Lam*
- ESI Highly Cited Paper
ReactomePA: an R/Bioconductor package for reactome pathway analysis and visualization4
Molecular BioSystems. 2016, 12(2):477-479
N/A
2016
- G Yu, QY He*
- ESI Highly Cited Paper
Integrated Translatomics with Proteomics to Identify Novel Iron–Transporting Proteins in Streptococcus pneumoniae5
Frontiers in Microbiology. 2016, 7:78
N/A
- XY Yang, K He, G Du, X Wu, G Yu, Y Pan, G Zhang*, X Sun*, QY He*
Genetic characterization of highly pathogenic H5 influenza viruses from poultry in Taiwan, 20156
Infection, Genetics and Evolution. 2016, 38:96-100
N/A
- PY Huang, CCD Lee, CH Yip, CL Cheung, G Yu, TTY Lam, DK Smith, H Zhu*, Y Guan*
ChIPseeker: an R/Bioconductor package for ChIP peak annotation, comparision and visualization7
Bioinformatics. 2015, 31(14):2382-2383
N/A
2015
- G Yu*, LG Wang, QY He*
- ESI Highly Cited Paper
DOSE: an R/Bioconductor package for Disease Ontology Semantic and Enrichment analysis8
Bioinformatics. 2015, 31(4):608-609
N/A
- G Yu*, LG Wang, GR Yan, QY He*
ACK1 Promotes Gastric Cancer Epithelial-Mesenchymal Transition and Metastasis through AKT-POU2F1-ECD Signaling9
Journal of Pathology. 2015, 236(2):175-185
N/A
- SH Xu, JZ Huang, ML Xu, G Yu, XF Yin, D Chen*, GR Yan*
Proteomic analysis on the copper resistance of Streptococcus pneumonia10
Metallomics. 2015, 7(3):448-454
N/A
- Z Guo, J Han, XY Yang, K Cao, K He, G Du, G Zeng, L Zhang, G Yu, Z Sun, QY He*, X Sun*
Proteomic analysis on the antibacterial activity of a Ru(II) complex against Strepococcus pneumonia11
Journal of Proteomics. 2015, 115:107-116
N/A
- XY Yang, L Zhang, J Liu, N Li, G Yu, K Cao, J Han, G Zeng, Y Pan, X Sun*, QY He*
Proteomic analysis of putative heme-binding proteins in Streptococcus pyogenes12
Metallomics. 2014, 6(8):1451-1459
N/A
2014
- N Wang#, J Zhang#, L Zhang, XY Yang, N Li, G Yu, J Han, K Cao, Z Guo, X Sun*, QY He*
Putative cobalt- and nickel-binding proteins and motifs in Streptococcus pneumonia13
Metallomics. 2013, 5(7):928-935
N/A
2013
- X Sun#, G Yu#, Q Xu, N Li, C Xiao, X Yin, K Cao, J Han, QY He*
A novel andrographolide derivative AL-1 exerts its cytotoxicity on K562 cells through a ROS-dependent mechanism14
Proteomics, 2013, 13(1):169-178
N/A
- YY Zhu#, G Yu#, Y Zhang, Z Xu, YQ Huang, GR Yan*, QY He*
A DNA-Based Semantic Fusion Model for Remote Sensing Data15
PLoS One. 2013, 8(10):e77090
N/A
- H Sun*, J Weng, G Yu, RH Massawe
Quantitative Proteomics Characterization on the Anti-tumor Effects of Isodexyelephantopin against Nasopharyngeal Carcinoma16
Proteomics. 2013, 13(21):3222-3232
N/A
- GR Yan#, Z Tan#, Y Wang, ML Xu, G Yu, Y Li*, QY He*
Design, SAR, angiogenic activities evaluation and pro-angiogenic mechanism of new marine cyclopeptide analogs17
Current Medicinal Chemistry. 2013, 20(9):1183-1194
N/A
- J Li, X Lu, Q Wu, G Yu, Z Xu, L Qiu, Z Pei, Y Lin, J Pang*
Proteomic investigation of the interactome of FMNL1 in hematopoietic cells unveils a role in calcium-dependent membrane plasticity18
Journal of Proteomics. 2013, 78:72-82
N/A
- Y Han, G Yu, H Sarioglu, A Caballero-Martinez, F Schlott, M Ueffing, H Haase, C Peschel, AM Krackhardt*
LXtoo: an integrated live Linux distribution for the bioinformatics community19
BMC Research Notes. 2012, 5(1):360
N/A
2012
- G Yu#, LG Wang#, XH Meng, QY He*
clusterProfiler: an R package for comparing biological themes among gene clusters20
OMICS: A Journal of Integrative Biology. 2012, 16(5):284-287
N/A
- G Yu, LG Wang, Y Han, QY He*
- ESI Highly Cited Paper
Cellular MicroRNA let-7c Inhibits M1 Protein Expression of the H1N1 Influenza A Virus in Infected Human Lung Epithelial Cells21
Journal of Cellular and Molecular Medicine. 2012, 16(10):2539-2546
N/A
- Y Ma#, J Yang#, X Fan#, H Zhao, W Hu, Z Li, G Yu, X Ding, J Wang, X Bo, X Zheng, Z Zhou*, S Wang*
Genistein-induced mitotic arrest of gastric cancer cells by downregulating KIF20A, a proteomics study22
Proteomics. 2012, 12(14):2391-2399
N/A
- GR Yan#, FY Zhou#, BL Dang, Y Zhang, G Yu, X Liu, QY He*
Functional similarity analysis of human virus-encoded miRNAs23
Journal of Clinical Bioinformatics. 2011, 1(1):15
N/A
2011
- G Yu, QY He*
A new method for measuring functional similarity of microRNAs24
Journal of Integrated OMICS. 2011, 1(1):49-54
N/A
- G Yu#, CL Xiao#, X Bo, CH Lu, Y Qin, S Zhan, QY He*
Phosphoproteome profile of human lung cancer cell line A54925
Molecular BioSystems. 2011, 7(2):472-479
N/A
- G Yu#, CL Xiao#, CH Lu#, HT Jia, F Ge, W Wang, XF Yin, HL Jia, JX He*, QY He*
Proteomic Analysis of Membrane Proteins from Streptococcus pneumoniae with Multiple Separation Methods plus High Accuracy Mass Spectrometry26
OMICS: A Journal of Integrative Biology. 2011, 15(10):683-694
N/A
- X Sun#, XY Yang#, XF Yin, G Yu, CL Xiao, X He, QY He*
GOSemSim: an R package for measuring semantic similarity among GO terms and gene products27
Bioinformatics. 2010, 26(7):976-978
N/A
2010
- G Yu#, F Li#, Y Qin, X Bo*, Y Wu, S Wang*
- ESI Highly Cited Paper
<U+7ED3>合基因<U+7EC4>分析<U+9884><U+6D4B>炎症相<U+5173>miRNA及其靶<U+6807>
<U+519B>事<U+533B><U+5B66>科<U+5B66>院院刊. 2009, 33(3):245-247
N/A
2009
- 余光<U+521B>,王超,<U+8BB8>尹,伯<U+6653>晨,王升<U+542F>*,秦宜德*
依<U+8D56>于5’端非<U+7F16><U+7801><U+533A>高<U+7EA7><U+7ED3>构的真核生物mRNA翻<U+8BD1><U+8C03>控
中<U+56FD>生物化<U+5B66>与分子生物<U+5B66><U+62A5>. 2007, 23(11):881-887
N/A
2007
- 余光<U+521B>,秦宜德,伯<U+6653>晨,王升<U+542F>*
Conference proceedings
R<U+8BED>言在生物信息<U+5B66><U+6570>据可<U+89C6>化中的<U+5E94>用
第八<U+5C4A>南方<U+533B>院博士<U+8BBA><U+575B>之《研之有信》, Oct 2019
Southern Medical University
2019
Data integration and visualization of phylogenetic trees
Managing Zoonotic Infections in the era of One Health, Oct 2019
Guangzhou Medical University
Two methods for mapping and visualizing associated data on phylogeny using ggtree
第一<U+5C4A>南方<U+533B>科大<U+5B66>基<U+7840><U+533B><U+5B66><U+5B66><U+672F>年<U+4F1A>, Jan 2019
Southern Medical University
Data integration and visualization of phylogenetic trees
The 3rd South Lake Innovation Forum for International Young Talents, May 2018
Huazhong Agricultural University
2018
ggtree for tree visualization & annotation
Phylogenetic tree visualization workshop/hackathon, May 2017
The Field Museum of Natural History
2017
Computational Methods in Ecology and Evolution
The Second International Workshop on Environmental Microbiomes, Apr 2017
Sun Yat-sen University
ggtree for visualization and annotation of phylogenetic trees
The 9th China-R Conference, May 2016
Renmin University of China
2016
Links
- https://academic.oup.com/mbe/article-abstract/35/12/3041/5142656
- https://doi.org/10.1093/bioinformatics/bty410
- http://onlinelibrary.wiley.com/doi/10.1111/2041-210X.12628/abstract
- http://pubs.rsc.org/en/Content/ArticleLanding/2016/MB/C5MB00663E
- http://journal.frontiersin.org/article/10.3389/fmicb.2016.00078/full
- http://www.sciencedirect.com/science/article/pii/S1567134815300721
- https://academic.oup.com/bioinformatics/article/31/14/2382/255379
- https://academic.oup.com/bioinformatics/article/31/4/608/2748221
- http://onlinelibrary.wiley.com/doi/10.1002/path.4515/abstract
- http://pubs.rsc.org/en/content/articlelanding/2015/mt/C4MT00276H
- II complex against Strepococcus pneumonia]http://www.sciencedirect.com/science/article/pii/S1874391914005521
- http://pubs.rsc.org/en/content/articlelanding/2014/mt/c4mt00027g
- http://pubs.rsc.org/en/content/articlelanding/2013/mt/c3mt00126a
- http://onlinelibrary.wiley.com/doi/10.1002/pmic.201200273/abstract
- http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0077090
- http://onlinelibrary.wiley.com/doi/10.1002/pmic.201300152/abstract
- http://www.eurekaselect.com/107734/article
- http://www.sciencedirect.com/science/article/pii/S1874391912007567
- http://www.biomedcentral.com/1756-0500/5/360/
- http://online.liebertpub.com/doi/abs/10.1089/omi.2011.0118
- http://onlinelibrary.wiley.com/doi/10.1111/j.1582-4934.2012.01572.x/abstract
- http://onlinelibrary.wiley.com/doi/10.1002/pmic.201100652/abstract
- https://jclinbioinformatics.biomedcentral.com/articles/10.1186/2043-9113-1-15
- http://www.jiomics.com/index.php/jio/article/view/21
- http://pubs.rsc.org/en/Content/ArticleLanding/2011/MB/C0MB00055H
- http://www.liebertonline.com/doi/abs/10.1089/omi.2010.0133
- http://bioinformatics.oxfordjournals.org/cgi/content/abstract/26/7/976